{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,24]],"date-time":"2026-06-24T12:01:35Z","timestamp":1782302495021,"version":"3.54.5"},"reference-count":31,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2019,8,14]],"date-time":"2019-08-14T00:00:00Z","timestamp":1565740800000},"content-version":"vor","delay-in-days":225,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["61571095"],"award-info":[{"award-number":["61571095"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012226","name":"Fundamental Research Funds for the Central Universities of China","doi-asserted-by":"crossref","award":["ZYGX2005Z006"],"award-info":[{"award-number":["ZYGX2005Z006"]}],"id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Clustered regularly interspaced short palindromic repeats (CRISPR) and associated proteins (Cas) constitute CRISPR\u2013Cas systems, which are antiphage immune systems present in numerous bacterial and most archaeal species. In recent years, CRISPR\u2013Cas systems have been developed into reliable and powerful genome editing tools. Nevertheless, finding similar or better tools from bacteria or archaea remains crucial. This requires the exploration of different CRISPR systems, identification and characterization new Cas proteins. Archives tailored for Cas proteins are urgently needed and necessitate the prediction and grouping of Cas proteins into an information center with all available experimental evidence. Here, we constructed Cas Protein Data Bank (CasPDB), an integrated and annotated online database for Cas proteins from bacteria and archaea. The CasPDB database contains 287 reviewed Cas proteins, 257\u2009745 putative Cas proteins and 3593 Cas operons from 32\u2009023 bacteria species and 1802 archaea species. The database can be freely browsed and searched. The CasPDB web interface also represents all the 3593 putative Cas operons and its components. Among these operons, 328 are members of the type II CRISPR\u2013Cas system.<\/jats:p>","DOI":"10.1093\/database\/baz093","type":"journal-article","created":{"date-parts":[[2019,8,15]],"date-time":"2019-08-15T02:36:19Z","timestamp":1565836579000},"source":"Crossref","is-referenced-by-count":23,"title":["CasPDB: an integrated and annotated database for Cas proteins from bacteria and archaea"],"prefix":"10.1093","volume":"2019","author":[{"given":"Zhongjie","family":"Tang","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"ShaoQi","family":"Chen","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ang","family":"Chen","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bifang","family":"He","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"},{"name":"School of Medicine, Guizhou University, Guiyang 550025, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuwei","family":"Zhou","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guoshi","family":"Chai","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"FengBiao","family":"Guo","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jian","family":"Huang","sequence":"additional","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2019,8,14]]},"reference":[{"key":"2019081407345622000_ref1","doi-asserted-by":"crossref","first-page":"234","DOI":"10.1016\/j.molcel.2014.03.011","article-title":"CRISPR-Cas systems: prokaryotes upgrade to adaptive immunity","volume":"54","author":"Barrangou","year":"2014","journal-title":"Mol. 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Microbiol."},{"key":"2019081407345622000_ref15","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1186\/s13578-018-0255-x","article-title":"Class 2 CRISPR\/Cas: an expanding biotechnology toolbox for and beyond genome editing","volume":"8","author":"Tang","year":"2018","journal-title":"Cell Biosci."},{"key":"2019081407345622000_ref16","doi-asserted-by":"crossref","first-page":"467","DOI":"10.1038\/nrmicro2577","article-title":"Evolution and classification of the CRISPR-Cas systems","volume":"9","author":"Makarova","year":"2011","journal-title":"Nat. Rev. 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Am. Coll. Cardiol."},{"key":"2019081407345622000_ref29","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1016\/j.molcel.2017.09.007","article-title":"The revolution continues: newly discovered systems expand the CRISPR-Cas toolkit","volume":"68","author":"Murugan","year":"2017","journal-title":"Mol. Cell"},{"key":"2019081407345622000_ref30","first-page":"1","article-title":"Prediction and diversity of tracrRNAs from type II CRISPR-Cas systems","author":"Chyou","year":"2018","journal-title":"RNA Biol."},{"key":"2019081407345622000_ref31","doi-asserted-by":"crossref","DOI":"10.1002\/biot.201700595","article-title":"In silico processing of the complete CRISPR-Cas spacer space for identification of PAM sequences","volume":"13","author":"Mendoza","year":"2018","journal-title":"Biotechnol. 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